LPS-MIA base analysis

##Load data

##Update functions

##First step QC (0) Subsetting and QC

[1] TRUE

##Normalization (1) Performing normalization

##Post-normalization QC (2) Performing post-normalization QC:

##Data correction (3) Correcting the data

##Post-correction QC (4) Post-correction QC

##DESeq2 anaylsis (5) Performing DESeq2

out of 16950 with nonzero total read count adjusted p-value < 0.1 LFC > 0 (up) : 2, 0.012% LFC < 0 (down) : 16, 0.094% outliers [1] : 0, 0% low counts [2] : 0, 0% (mean count < 1) [1] see ‘cooksCutoff’ argument of ?results [2] see ‘independentFiltering’ argument of ?results

##Interactive results table (5.1) Results

##Plotting results (6) Plotting results

##Boxplots of DEGs (7) Boxplots of DEGs